Toward knowledge support for analysis and interpretation of complex traits

Table 1 Phenotype annotation resources

	URL
Representation
Adult Mouse Ontology	http://bioportal.bioontology.org/ontologies/1000
FMA	http://sig.biostr.washington.edu/projects/fm
FYPO	http://bioportal.bioontology.org/ontologies/1689
GO	http://www.geneontology.org
HPO	http://www.human-phenotype-ontology.org
MP	http://www.obofoundry.org/cgi-bin/detail.cgi?id=mammalian_phenotype
OMIM	http://www.ncbi.nlm.nih.gov/omim
PATO	http://obofoundry.org/wiki/index.php/PATO:Main_Page
WP	http://www.obofoundry.org/cgi-bin/detail.cgi?id=worm_phenotype
Acquisition
DECIPHER	http://decipher.sanger.ac.uk
FlyBase	http://flybase.org
MetaMap	http://www.nlm.nih.gov/research/umls/implementation_resources/metamap.html
MIPS ATD	http://mips.helmholtz-muenchen.de/plant/athal
MPD	http://phenome.jax.org
NCBO Annotator	http://bioportal.bioontology.org/annotator
OrphaNET	http://www.orpha.net
PhenomicDB	http://www.phenomicdb.de
PhenoHM	http://phenome.cchmc.org/phenoBrowser/Phenome
PhenoScape	http://phenoscape.github.io
Textpresso	http://www.textpresso.org
WormBase	http://www.wormbase.org
ZFIN	http://zfin.org

DECIPHER, Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources; FMA, Foundation Model of Anatomy; FYPO, Worm Phenotype Ontology; GO, Gene Ontology; HPO, Human Phenotype Ontology; MIPS, Munich Information Center for Protein Sequence; MP, Mouse Phenotype Ontology; MPD, Mouse Phenome Database; NCBO, National Center for Biomedical Ontology; OMIM, Online Mendelian Inheritance of Man database; PATO, Phenotype and Trait Ontology; WP, Worm Phenotype Ontology; ZFIN, Zebrafish Information Network.